4EC4

XIAP-BIR3 in complex with a potent divalent Smac mimetic

Structural Biology Knowledgebase: 4EC4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.210

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4EC4

Classification: APOPTOSIS INHIBITOR

Total Structure Weight: 149597.02

Macromolecule Entities
Molecule Chains Length Organism Details
Baculoviral IAP repeat-containing protein 4 A, B, C..., D, E, F, G, J, K, LA, B, C, D, E, F, G, J, K, L 122 Homo sapiens EC#: 6.3.2 IUBMB
Fragment: BIR3 domain (UNP residues 241-356)
Gene Name(s): XIAP Gene View API3 BIRC4 IAP3
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0O6
Query on 0O6

A, B, D, E, J (3S,6S,7S,9aS,3'S,6'S,7'S,9a'S)-N,N'-(benzene- 1,4-diylbis{butane-4,1-diyl-1H-1,2,3-triazole- 1,4-diyl[(S)-phenylmethanediyl]})bis[7-(hydroxymethyl)- 6-{[(2S)-2-(methylamino)butanoyl]amino}-5- oxooctahydro-1H-pyrrolo[1,2-a]azepine-3-carboxamide]
C64 H88 N14 O8
XKEIDWZKJDOBEL-OKDMWEIPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
2PE
Query on 2PE

E, G NONAETHYLENE GLYCOL
C18 H38 O10
YZUUTMGDONTGTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
P33
Query on P33

A, D, J 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL
PEG330, (Synonym)
C14 H30 O8
XPJRQAIZZQMSCM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, C, D, E, F, G, J, K, L ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0O6 IC50: 25.4 nM (99) BindingDB

N/A in BindingMoad
IC50: 25.4 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.276
  • R-Value Work: 0.210
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 65.42 α = 90.00
b = 130.49 β = 90.00
c = 215.73 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-03-26
  • Released Date: 2012-12-05
  • Deposition author(s): Mastrangelo, E., Cossu, F., Bolognesi, M., Milani, M.

Revision History

No revisions since initial release